RetrogeneDB ID: retro_etel_1280

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_240229:6803..7235(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: ZCCHC17
• Ensembl ID: ENSETEG00000007421
• Aliases: None
• Description: zinc finger, CCHC domain containing 17 [Source:HGNC Symbol;Acc:30246]

Sequence

>retro_etel_1280
AGGCGAGGCCTTGTCCATGGAACTCACACGTCATCTTGCGGGGTAGATAAGCCCTGGGAGATAGTAGATGTTGGCGACCA
GGTGTGGGTGAAGCTCATTGGCCGAGAGATGAAAAATGATAGGATAAAGGTATCTCTCTCCATGAAAGTTGTCAACCAAG
GGACTGGGAAAGACCTGGATCTCAACAACGTTATTATTGAGCAAGAAGAGAGACGCAGACAGTCCTTGCAGGATTACACC
GGGCAGAAGATCACCCTTGAGGCTGTCCTGAACACTACCTGCAACAAGTGTGGCTGTGAAGGCCACTTTGCAAAGGATTG
TTGCATGCAGCCAGGTGGGACCAAGTATTCTCTGATACCTGATGAGGAAGAGGAGAAGGAAGAGGCAAAGTCAGCAGAGT
TGGAGAAACCTGACCCCGAGAAGAATTCTTCT

Alignment

ORF - retro_etel_1280 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.28 %
• Parental protein coverage: 59.83 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KQGLVHRTHMSSCRVDKPSEIVDVGDKVWVKLIGREMKNDRIKVSLSMKVVNQGTGKDLDPNNVIIEQEE
          ..GLVH.TH.SSC.VDKP.EIVDVGD.VWVKLIGREMKNDRIKVSLSMKVVNQGTGKDLD.NNVIIEQEE
Retrocopy RRGLVHGTHTSSCGVDKPWEIVDVGDQVWVKLIGREMKNDRIKVSLSMKVVNQGTGKDLDLNNVIIEQEE

Parental  RRRRSFQDYTGQKITLEAVLNTTCKKCGCKGHFAKDCFMQPGGTKYSLI-DEEEEKEEAKSAELEKPDPE
          RRR.S.QDYTGQKITLEAVLNTTC.KCGC.GHFAKDC.MQPGGTKYSLI.DEEEEKEEAKSAELEKPDPE
Retrocopy RRRQSLQDYTGQKITLEAVLNTTCNKCGCEGHFAKDCCMQPGGTKYSLIPDEEEEKEEAKSAELEKPDPE

Parental  KNSS
          KNSS
Retrocopy KNSS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_1280 was not experimentally validated.

Homology

Retrocopy orthology:

Echinops telfairi does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017710	1 retrocopy	retro_amel_1501,
Bos taurus	ENSBTAG00000016818	2 retrocopies	retro_btau_168, retro_btau_273,
Canis familiaris	ENSCAFG00000011131	2 retrocopies	retro_cfam_485, retro_cfam_835,
Callithrix jacchus	ENSCJAG00000006259	1 retrocopy	retro_cjac_4218,
Dasypus novemcinctus	ENSDNOG00000000509	1 retrocopy	retro_dnov_2548,
Echinops telfairi	ENSETEG00000007421	1 retrocopy	retro_etel_1280 ,
Myotis lucifugus	ENSMLUG00000000594	1 retrocopy	retro_mluc_2176,
Monodelphis domestica	ENSMODG00000017082	1 retrocopy	retro_mdom_252,
Mustela putorius furo	ENSMPUG00000015442	1 retrocopy	retro_mputfur_680,
Mus musculus	ENSMUSG00000028772	1 retrocopy	retro_mmus_2150,
Sorex araneus	ENSSARG00000007944	1 retrocopy	retro_sara_691,
Tursiops truncatus	ENSTTRG00000014870	2 retrocopies	retro_ttru_1383, retro_ttru_1613,